KasperSkytte / AutoTaxLinks
Generate de novo taxonomy of full length 16S rRNA sequences directly from environmental samples
☆20Updated last year
Alternatives and similar repositories for AutoTax
Users that are interested in AutoTax are comparing it to the libraries listed below
Sorting:
- 16S taxonomy assignment using an ecosystem-specific database.☆17Updated 2 years ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆55Updated 7 months ago
- Speedy versions of phyloseq functions☆48Updated last year
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆73Updated 3 years ago
- workflows for offline analysis of 16S rRNA Nanopore data☆16Updated 2 years ago
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆32Updated 3 years ago
- R package for microbial pangenomics☆24Updated 3 years ago
- ☆13Updated 6 years ago
- A microbiome analysis toolkit for R☆25Updated 2 years ago
- Experimental pipeline to perform de novo PICRUSt on de-noised amplicon sequence variants (ASV)☆19Updated 7 years ago
- Phylogenetic Organization of Metagenomic Signals (POMS)☆18Updated 3 years ago
- Compare different differential abundance and expression methods☆52Updated 3 years ago
- An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studi…☆34Updated 5 years ago
- Tools for extracting individual genomes from metagenomes☆16Updated 2 years ago
- functions for analyzing phyloseq data☆28Updated last year
- ☆42Updated 8 years ago
- Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake☆50Updated last year
- Plot microbiome time series in parallel☆27Updated 2 years ago
- Working with the outputs of sourmash in R☆28Updated 3 weeks ago
- Qiime2 snakemake pipeline☆20Updated 2 years ago
- accessory functions for processing microbial community data☆12Updated 3 years ago
- repo for cicese metatranscriptomics workshop, nov 2018☆14Updated 6 years ago
- Make a non-redundant, comprehensive COI database from NCBI and BOLD and include customizing options☆16Updated 8 months ago
- A set of R scripts for the analysis of microbial profiles☆41Updated last month
- Amplicon sequence processing workflow using QIIME 2 and Snakemake☆45Updated last month
- Miscellaneous functions for metagenomic analysis.☆53Updated last month
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆34Updated 5 years ago
- ☆32Updated last year
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆25Updated 6 months ago
- Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs☆17Updated 4 years ago